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Review

Noncoding RNAs Interactions in Hepatic Stellate Cells during Hepatic Fibrosis

by
Siti Aishah Sulaiman
*,
Vicneswarry Dorairaj
,
Khairun Nur Abdul Ghafar
and
Nor Azian Abdul Murad
UKM Medical Molecular Biology Institute (UMBI), Jalan Yaacob Latif, Kuala Lumpur 56000, Malaysia
*
Author to whom correspondence should be addressed.
Livers 2021, 1(4), 263-285; https://doi.org/10.3390/livers1040021
Submission received: 29 September 2021 / Revised: 17 November 2021 / Accepted: 22 November 2021 / Published: 29 November 2021
Browse Figure
Versions Notes

Abstract

:
Hepatic fibrosis is a reversible wound healing process following liver injury. Although this process is necessary for maintaining liver integrity, severe excessive extracellular matrix accumulation (ECM) could lead to permanent scar formation and destroy the liver structure. The activation of hepatic stellate cells (HSCs) is a key event in hepatic fibrosis. Previous studies show that most antifibrotic therapies focus on the apoptosis of HSCs and the prevention of HSC activation. Noncoding RNAs (ncRNAs) play a substantial role in HSC activation and are likely to be biomarkers or therapeutic targets for the treatment of hepatic fibrosis. This review summarizes and discusses the previously reported ncRNAs, including the microRNAs, long noncoding RNAs, and circular RNAs, highlighting their regulatory roles and interactions in the signaling pathways that regulate HSC activation in hepatic fibrosis.

1. Introduction

Hepatic fibrosis is a continuous wound healing process seen as an outcome in various liver diseases such as viral hepatitis, alcoholic and non-alcoholic liver disease, drug abuse, and others [1]. The process of wound healing is necessary for the healthy maintenance of liver tissue integrity. However, severe fibrosis characterized by abnormal connective tissue hyperplasia and extracellular matrix (ECM) deposition could lead to scar formation and a change of the liver structure and function, eventually causing organ failure [2]. Clinical and experimental studies have shown that hepatic fibrosis is dynamic and could be reversed [3,4]. Although the mechanisms of reversibility are partly understood, the interplays between the intra- and extra-cellular environments in the hepatic stellate cell (HSC) could yield important insights [5].
Typically, HSCs are quiescent non-proliferative liver cells with intracellular lipid droplets containing vitamin A [6]. Upon pathological insults such as toxins, metabolic or viral diseases leading to liver injury, a trans-differentiation of HSCs to myofibroblasts occurs [5]. Following the injury, the apoptotic hepatocytes and Kupffer cells (resident macrophages) cause the release of the profibrotic cytokines (tumor necrosis factor-α (TNFA or also known as TNF-α), platelet-derived growth factor (PDGF), and transforming growth factor-β (TGFB)), leading to HSC activation and collagen type I (COL1A1) deposition. The upregulation of cytoskeletal proteins such as α-smooth muscle actin (ACTA2 or also known as α-SMA) and desmin (DES) changes the cell phenotypes into proliferative and contractile shapes [5]. Activated HSCs then lead to the secretion of pro-inflammatory cytokines including interleukins (IL-6 and IL-8), and C-C motif chemokine ligand 2 (CCL2), thus recruiting the inflammatory cells to the injury site [7]. Moreover, activated HSCs also produce tissue inhibitors of matrix metallopeptidases (TIMP) and increase the ECM synthesis and deposition [5], causing fibrosis.
Previous studies of experimental models of liver fibrosis reversal showed that antifibrotic therapies focus on the apoptosis of the HSCs [3,4]. The activation of the death-related receptor such as Fas cell surface death receptor (FAS) could lead to HSC cell death. However, this effect is also observed in hepatocytes, as the FAS receptor is ubiquitously expressed on both cells [8]. Fortunately, the expression of TNF-related apoptosis-induced ligand, the TNF superfamily member 10b receptor (TNFRSF10B, also known as TRAIL-R2), is upregulated in activated human HSC cell line (LX-2) only during fibrogenesis [9]. Thus, the TNFRSF10B agonists could induce apoptosis specifically to activated HSCs to reverse the fibrosis. Another antifibrotic mechanism includes using the antifibrotic cytokines such as interferon γ (IFNG) [10] or inhibiting the TNFA and TGFB1 signals to prevent the proliferation of HSCs or inducing HSCs apoptosis [11]. Thus, identifying and recognizing the HSCs’ activation and apoptosis regulators will offer a window of reversing hepatic fibrosis.
Whole-genome sequencing and transcriptomics studies revealed that noncoding RNAs (ncRNAs) play significant roles in regulating liver diseases, including hepatic fibrosis [12,13,14,15]. Generally, ncRNAs are grouped into two classes based on their sizes: small ncRNAs (size less than 200 base pairs (bp)) and large ncRNAs (size more than 200 bp). Some ncRNAs could target or regulate multiple genes simultaneously and interact to form the regulatory networks, regardless of their classes [12,14]. In this review, we summarized and discussed the roles of the main three classes of ncRNAs, the microRNA (miRNA), long noncoding RNA (lncRNA), and circular RNA (circRNA), as well as their interactions in regulating the HSC activation during hepatic fibrosis development.

2. MicroRNAs and HSCs

MicroRNA is a single-stranded short ncRNA (~25 nucleotides) that regulates gene expression. The biogenesis of miRNA has been described earlier in extensive detail, in both canonical and non-canonical pathways [16]. The RNA polymerase transcribes miRNA as individual genes or clusters of miRNA genes from the same promoter for the canonical pathway. This transcription process results in a primary transcript (pri-miRNA), which is then processed by a microprocessor complex consisting of RNAse III-type endonuclease Drosha and its associated protein, DiGeorge Syndrome Chromosomal Region 8 (DGCR8)/Pasha. This microprocessor processing leads to the formation of individual stem-loop miRNA precursors (pre-miRNA). The pre-miRNA is then exported by Exportin 5 (XPO5) into the cytoplasm and processed by the RNAse III-type endonuclease, Dicer that cleaves the loop structure producing the miRNA duplex [16]. One strand of the miRNA is incorporated into the Argonaute protein to form the miRNA-Induced Silencing Complex (miRISC). The sequence complementarity between the miRNA and target messenger RNA (mRNA) 3’ untranslated region (UTR) determines which miRNA strand is selected [17]. A perfect complementary binding will result in mRNA degradation. In contrast, an incomplete binding will result in mRNA translational repression. The non-canonical miRNAs are located in the intron region of the genes and are known as the mirtrons [18]. The splicing mechanism directly produces the stem-loop pre-miRNAs during the mRNA processing, thus bypassing the microprocessor complex of Drosha/DGCR8 processing. Then, the miRNA biogenesis continues, similar to the canonical pathway [18]. Thousands of miRNAs are currently known, and their complementary sequence bindings between the miRNA and target mRNA are listed in the database [19]. Since miRNA sequence is conserved across the species, it is possible to predict the target mRNA or gene based on the complementary sequence-binding [20,21]. Among the ncRNAs, miRNA is the most studied ncRNA concerning the HSC activation in hepatic fibrosis [12,14] (Table 1).

2.1. Profibrotic miRNAs

Most of the miRNAs that promote HSC activation are in the transforming growth factor-beta (TGFB) pathway (Table 1 and Figure 1). TGFB is a master fibrogenic cytokine responsible for activating and transdifferentiating quiescent HSC to a myofibroblast phenotype [82]. TGF-β binding to its receptor (TGFBR1) leads to the activation of SMAD2 and SMAD3 via direct C-terminal phosphorylation [82]. Phosphorylated SMAD2 and SMAD3 form a complex with SMAD4 and then move into the nucleus to associate with transcription factors for target-gene transcription [82]. SMAD6 and SMAD7 negatively regulate the TGFB signaling pathway, establishing the negative feedback loop [83,84]. SMAD7 binds to the TGFB receptor (TGFBR), blocking the receptor from phosphorylating the R-SMAD proteins for the downstream effects [83,85]. SMAD7 also recruits the ubiquitin ligases to the TGFBR, leading to the degradation via the proteasomal pathway [86]. Three miRNAs, miR-17-5p, miR-212-3p, and miR-503, directly regulate the SMAD family member 7 (Smad7) expression in the mouse and rat models of hepatic fibrosis [29,35,41]. Thus, upregulation of these miRNAs (miR-17-5p, miR-212-3p, and miR-503) in HSCs will reduce the expression of Smad7, preventing the negative feedback loop on TGFB-induced HSC activation. Notably, miR-145 negatively regulates Kruppel like factor 4 (KLF4) expression [28], and KLF4 is one of the transcription factors that induce the expression of SMAD7 [87]. Upregulation of miR-145 expression in human HSC cell line (LX-2) is consistent with the activation of TGFB-mediated HSC activation and ECM protein synthesis and deposition [28] via the suppression of KLF4 expression. Another negative regulator of the TGFB pathway is the Caveolin 2 (CAV2) [88]. Upregulation of miR-199a-3p expression in both human and rat HSC cell lines reduces the expression of CAV2 and leads to TGFB-mediated HSC activation [33]. Other miRNAs regulate molecules that activate the TGFB signaling. One of these is miR-125a-5p, which directly regulates hypoxia-inducible factor 1 subunit alpha (Hif1a) expression in carbon tetrachloride-induced fibrotic mice [22]. A previous study of experimental liver injuries showed that regions of hypoxia develop in the liver, and this hypoxic condition stimulates HSC activation and collagen production following the diethylnitrosamine (DEN) treatment in rats [89] by activating the Tgfb/Smad pathway [90]. Therefore, this miRNA network suppressing the TGFB/SMAD negative regulators will favor the HSC activation.
Emerging evidence also indicates that other signaling pathways could induce HSC activation. An example is the Phosphatidylinositol-3 kinase (PI3K) and serine-threonine protein kinase AKT (PI3K/AKT) signaling pathway, which regulates the cell growth and proliferation of HSCs [91,92]. Although the exact mechanism is partly understood, PI3K induces AKT activation to increase cell proliferation via the upregulation of cyclin D1 (CCND1) expression, a regulatory subunit of cyclin-dependent kinases for the cell cycle G1/S transition [92]. The PI3K phosphorylates the phosphatidylinositol 4,5-bisphosphate (PIP2) to phosphatidylinositol 3,4,5-triphosphate (PIP3). This PIP3 then binds to AKT, leading to its recruitment to the membrane and the binding to phosphoinositide-dependent kinases (PDK). PDK kinases phosphorylate the AKT for its activation [93]. Phosphatase and tensin homolog (PTEN) negatively regulate PI3K/AKT signaling by reversing the PIP3 into PIP2 [93], thus acting as a negative regulator for this pathway. Previous studies of miRNAs reported that four miRNAs, miR-140-3p [26], miR-181b [30], miR-188-5p [32], and miR-23a [39] directly suppress the Pten expression to promote the PI3K/AKT signaling. Subsequently, the HSC activation and hepatic fibrosis in carbon tetrachloride (CCI(4)) mouse models. Importantly, peroxisome proliferator-activated receptor gamma (PPARG) can transcriptionally upregulate PTEN expression [93], contributing to the complex co-regulatory network. Three miRNAs (miR-130a [24], miR-130b [24], and miR-27a [40]) reduce the Pparg expression to promote HSC activation as observed in the mouse and rat models of fibrosis, therefore, adding another layer of negative regulation to the PTEN enzyme.
Another reported pathway is the extracellular signal-regulated kinase (ERK) signaling pathway [94]. The release of PDGF cytokine and phosphorylation of the PDGF receptor activates the Rat Sarcoma Virus (RAS) and its downstream signaling pathways (RAF proto-oncogene serine/threonine-protein kinase (RAF1), dual-specificity mitogen-activated protein kinase (MEK), PI3K/AKT, and ERK signaling) [95]. These signaling pathways promote the phosphorylation and activation of cytoplasmic proteins and transcription factors (activator protein 1 (AP-1) and nuclear factor kappa B (NFKB)), thus, causing the synthesis and accumulation of ECM proteins [95]. Among the miRNAs, miR-21 negatively regulates Sprouty RTK signaling antagonist 2 (SPRY2) and Hepatocyte nuclear factor 4 alpha (HNF4A) expressions [34]. Upregulation of miR-21 expression stimulates HSC activation in the mouse HSC cell line via reducing the Spry2 expression to increase ERK1 signaling, as Spry2 is a known inhibitor for ERK signaling pathways [96]. At the same time, miR-21 reduces the expression of Hnf4a to trigger the HSC synthesis of collagen proteins in both human and murine HSC cell lines [97,98]. Since PDGF is the most potent factor to stimulate HSC activation [95], the inhibition of miR-21 action may provide a new alternative to treat hepatic fibrosis.

2.2. Anti-Fibrotic miRNAs

Similar to profibrotic miRNAs, the majority of the antifibrotic miRNAs are suppressing the TGFB signaling pathways. These miRNAs’ expressions are reduced in HSC activation, thus releasing the suppressions of their target genes and allowing the TGFB signaling activation. Examples include miR-146a [55] and miR-34a-5p [71] that negatively regulate the expression of Smad4 as observed in the CCI(4)-induced fibrotic mice, and Smad4 is an essential signal transducer in the TGFB pathway. Other miRNAs are the miR-101 that negatively regulates the Tgfb receptor and Kruppel like factor 6 (Klf6, a TGFB downstream effector) [45], miR-9-5p and miR-130a-3p that also negatively regulates both Tgfb receptors [51,80], miR-142-3p that negatively regulates Tgfbr1 [53], miR-200a that negatively regulates Tgfb2 [64] and Sirtuin 1 (Sirt1, an inhibitor of TGFB signaling) [65], miR-378 that also negatively regulates TGFB2 [74], miR-30 that negatively regulates Kruppel like factor 11 (Klf11, an inhibitor of SMAD7) [67], miR-708 that negatively regulates Zinc finger E-box binding homeobox 2 (Zeb2, the EMT transcription factor that interacts with SMAD proteins) [42], miR-30a that negatively regulates Beclin 1 (BECN1, a SMAD2 downstream effector) [68], miR-122 that negatively regulates Serum response factor (SRF, a suppressor of SMAD2-mediated TGFB action) [48], miR-150 that negatively regulates SP1 transcription factor 1 (SP1, SMAD protein complex) [58], and miR-34a-5p that negatively regulates Snail family transcriptional repressor 1 (Snai1, the EMT downstream effector of TGFB signaling) [71] in both human and murine HSC cell lines. In addition, some of these miRNAs reduce the TGFB-mediated fibrosis proteins such as miR-122 that negatively regulates Fibronectin 1 (FN1) [48], miR-29b that negatively regulates Collagen type I alpha 1 chain (Col1a1) [66], miR-150 that negatively regulates Collagen type IV alpha 4 chain (COL4A4) [58], and miR-335 that negatively regulates Tenascin C (Tnc) [69], as observed in both human and murine HSC cell lines. Identifying more miRNA regulatory networks that inhibit the TGFB-mediated HSC activation and ECM accumulation is essential, as these miRNAs could be used for future developments of therapeutics drugs to treat hepatic fibrosis.
Besides the TGFB pathway, miRNAs also regulate the Wnt/Beta-catenin signaling to inhibit HSC activation. One example is miR-200a which reduces the expression of Beta-catenin (Ctnnb1) in the CCI(4)-induced rat fibrosis model and mouse HSC cell line [64]. The Ctnnb1 is a component of Wingless/Integrated (WNT) signaling [99]. Although WNT signaling does not directly contribute to the HSC phenotype change, this pathway activation leads to the inducements of various players in the TGFB pathway [100]. Loss of miR-200a expression increases the expression of Ctnnb1, and beta-catenin will then form complexes with Transcription factor (Tcf) and Lymphoid enhancer-binding factor 1 (Lef1) to regulate the transcription of downstream target genes [100]. Notably, miR-155 negatively regulates the expression of TCF4 as observed in the human HSC cell line [60], thus adding another layer of this co-regulatory miRNA network. Two miRNAs, miR-378a-3p [76] and miR-454 [77], negatively regulate the WNT family member 10A (Wnt10a) expression in the murine models of fibrosis, and thus cause the inhibition of WNT signaling, as the Wnt10a is a member of the WNT/beta-catenin pathway. Another miRNA, miR-146a-5p, also negatively regulates the expression of WNT family members (Wnt1 and Wnt5a), and the loss of this miRNA expression promotes HSC proliferation and activation [56].
Another suppressed pathway is the Hedgehog (Hh) signaling pathway. Three miRNAs (miR-125b [49], miR-152 [59], and miR-378a-3p [75]) directly reduce the expression of GLI family zinc finger 3 (Gli3), the final effector of Hh signaling, as observed in the murine models of hepatic fibrosis. Hh signaling is essential to control embryonic development during early life. This function is inactive during the postnatal life, where the Hh signaling is minimally involved in stem cell maintenance, cell/tissue repair, and proliferation [101]. Although the exact mechanism of GLI3 in HSC activation is partly understood, a previous study of primary rat HSCs showed that Gli3 might be involved in the control of the cell cycle and regeneration during HSC activation [102]. Besides GLI3, other miRNAs also regulate cell cycle regulators such as miR-195 that negatively regulates Cyclin E1 (CCNE1) in human HSC cell lines [63], and miR-338-3p that negatively regulates Cyclin-dependent kinase 4 (Cdk4) in both rat primary and cell line HSCs [70]. These miRNAs negatively regulate the profibrotic molecules and effectors to maintain a healthy liver environment and prevent HSC activation upon restoring their expressions. Therefore, further research is needed to elucidate whether these miRNAs could be used as future treatments for hepatic fibrosis.

3. Long Noncoding RNAs and HSCs

Like miRNAs, the long noncoding RNA (lncRNA) regulates important biological pathways. LncRNAs are large RNA transcripts (size is more than 200 bp) without protein-coding capacity [103]. The biogenesis and classification of the lncRNAs have been described previously [103,104]. The lncRNA is produced similarly to the mRNA, often having the 5′-capped, splicing, and sometimes the poly-A tail [105]. The classifications of the lncRNAs are complex as these lncRNAs are diverse and lack primary sequence conservation [104]. Generally, lncRNAs are grouped based on their genomic origins: (1) sense exonic lncRNA (produced from the sense strand of a gene), (2) antisense exonic lncRNA (produced from the exons of a gene on the opposite strand), (3) sense intronic lncRNA (produced from the sense strand of a gene overlapping partially or entirely with intron), (4) antisense intronic lncRNA, (5) intergenic lncRNA (lincRNA, transcribed from the region between two genes), and (6) bidirectional lncRNA (produced from the opposite strand, in the opposite direction and within 1 kb of the promoter of a gene) [104]. Importantly, lncRNAs exhibit more specific expression profiles than mRNAs [106,107], in which they are cell-, tissue-, developmental stage- or disease state-specific, despite being lowly expressed [108].
The interactions between the lncRNAs and their target molecules elucidate the biological mechanisms of their regulation. The lncRNAs could act as cis- or trans-regulating actions on their target gene [103,104]. For example, lncRNAs cis-regulate their target gene at the point of transcription or nearby location, whereas lncRNAs trans-regulate their target gene at different loci or other locations in the cell [103,104]. LncRNAs regulate gene expression by epigenetic regulation, chromatin remodeling, transcriptional and post-transcriptional regulation via the interactions with DNA, other RNA, and proteins [103]. Mechanistically, lncRNAs can act as (1) scaffolds, providing a site for molecular interactions, (2) decoys, preventing proteins from accessing other proteins, and (3) sponges, binding to the target RNAs such as miRNAs via the complementary base-pairing and thus preventing other binding events [103,104,109]. Moreover, cellular localization can influence the lncRNA regulatory role in which the nuclear lncRNAs regulate the gene expression via chromatin remodeling and epigenetic regulation, whereas the cytoplasmic lncRNAs regulate the gene expression via post-transcriptional and post-translational regulation [103,109]. Previous studies have reported various lncRNAs in liver health and fibrosis [13,110,111,112] (Table 2 and Figure 1).
Like miRNAs, most of the previously reported lncRNAs in HSC are in the TGFB signaling pathway. An example is the lncRNA Liver fibrosis-associated lncRNA 1 (Lnc-Lfar1) that was higher upon HSC activation in CCl(4)-induced hepatic fibrosis [113]. Lnc-Lfar1 binds to the Smad2/3 complex and acts as a scaffold to facilitate the interaction between Smad2/3 and TGFB receptor (Tgfbr) [113], thus activating TGFB signaling. Intriguingly, another lncRNA, H19 imprinted maternally expressed transcript (H19), acts as a miR-148a sponge to release the suppression on Ubiquitin specific peptidase 4 (Usp4) expression in CCl(4)-induced hepatic fibrosis [114]. USP4 is required to stabilize the TGFBR for TGFB signaling [115]. Like H19, another lncRNA, HOXA distal transcript antisense RNA (HOTTIP), also acts as a miR-148a sponge, and this binding increases the TGFBR expression in both human and mouse HSC cell lines [116]. LncRNA HOTTIP directly binds to miR-148a expression and prevents its suppression on TGFBR [116], thus adding another layer of the co-regulatory networks between these lncRNAs on TGFBR regulation. In contrast, in a study of mouse HSCs, the lncRNA HOTTIP acts as a miR-150 sponge and increases the expression of Srf [117], and Srf is a suppressor of Smad2-mediated Tgfb action [48], showing the dual regulatory roles of HOTTIP in HSC activation. Another suppressor of SMAD protein is SIRT1 that stimulates the deacetylation of SMAD3 and prevents its binding to the promoter region of fibrogenic genes, as observed in human HSC cell lines [118]. LncRNA MALAT-1 is higher in HSC activation and liver fibrosis, and this lncRNA negatively regulates SIRT1 expression [118].
Table
Table 2. Summary of long noncoding RNA (lncRNA) involved in human hepatic stellate cells (HSC) activation in fibrosis.
Table 2. Summary of long noncoding RNA (lncRNA) involved in human hepatic stellate cells (HSC) activation in fibrosis.
LncRNAExpressionTarget MoleculeDisease ModelFunctionRole in FibrosisReferences
GPR137B-PSUpmiR-200a-3p/CXCL14Mouse CCI(4)-treatedHSC activation and collagen productionProfibrotic[119]
H19UpmiR-148a/Usp4Mouse CCI(4)-treated, Human LX-2, L02 and HEK293T/17 cell linesHSC activation via TGFB1 pathwayProfibrotic[114]
HOTAIRUpmiR-29b/Dnmt3b/PtenPatient samples, Mouse CCI(4)-treatedHSC activation and collagen productionProfibrotic[120]
UpmiR-148b/DNMT1Patient samples, Mouse CCI(4)-treated, Human LX-2, AML-12 and RAW264.7 cell linesHSC activation and collagen productionProfibrotic[121]
UpPRC2Patient samples, Mouse CCI(4)-treated, Human LX-2, AML-12 and RAW264.7 cell linesHSC activation and collagen productionProfibrotic[121]
HOTTIPUpmiR-148a/TGFBRPatient samples, Mouse CCI(4)-treatedHSC activationProfibrotic[116]
UpmiR-150/SrfMouse CCI(4)-treatedActivates HSC proliferationProfibrotic[117]
LINC-SCRG1UpZFP36Patient samples, Human LX-2 cell lineActivates HSC proliferation and ECM protein accumulationProfibrotic[122]
Lnc-Lfar1UpSmad2/3Mouse CCI(4)-treated, AML-12 and HEK293T cell linesHSC activation via TGFB1 and Notch pathwaysProfibrotic[113]
LNCRNA-ATBUpmiR-200a/CTNNB1Patient samples, Human LX-2 cell lineHSC activation via Wnt/β-catenin pathwayProfibrotic[123]
MALAT1UpmiR-101b/RAC1Mouse CCI(4)-treatedHSC activation and collagen productionProfibrotic[124]
UpSIRT1Mouse CCI(4)-treated, Human LX-2 cell lineHSC activation and collagen productionProfibrotic[118]
MEG8UpNOTCH2/3Human LX-2 and AML-12 cell lineSuppresses HSC activation and collagen productionAnti-fibrotic[125]
NEAT1UpmiR-122/Klf6Mouse CCI(4)-treatedHSC activation and collagen productionProfibrotic[126]
UpmiR-148a-3p/miR-22-3p/Cyth3Mouse CCI(4)-treatedHSC activation and collagen productionProfibrotic[127]
UpmiR-139-5p/CTNNB1Mouse CCI(4)-treated, Human LX-2 cell lineActivates HSC proliferationProfibrotic[128]
Pvt1UpmiR-152/Dnmt1/Ptch1Mouse CCI(4)-treatedHSC activation and collagen productionProfibrotic[129,130]
Scarna10UpPrc2Patient samples, AML-12 cell line; Mouse CCI(4)-treatedHSC activationProfibrotic[131]
Snhg7UpmiR-29b/Dnmt3aMouse CCI(4)-treatedActivates HSC proliferationProfibrotic[132]
UpmiR-378a-3p/Dvl2Patient samples; Mouse CCI(4)-treated, Human LX-2 cell lineActivates HSC proliferationProfibrotic[133]
Tug1UpmiR-29bPatient samples, Mouse CCI(4)-treated, Human LX-2 and HEK293T cell linesHSC activation and profibrogenic factorsProfibrotic[134]
XISTUpmiR-29b/HMGB1Mouse model, Human LX-2 cell lineHSC activation and profibrogenic factorsProfibrotic[135]
Gas5DownmiR-222/CDKN1BPatient samples, Mouse CCI(4)-treatedSuppresses HSC activation and collagen productionAnti-fibrotic[136]
DownmiR-23a/PtenRat CCI(4)-treatedSuppresses HSC activation Anti-fibrotic[39]
HIF1A-AS1DownTET3Human LX-2 cell lineSuppresses HSC proliferationAnti-fibrotic[137]
LINCRNA-P21DownmiR-181b/PTENPatient samples, Human LX-2 cell lineSuppresses HSC activation and collagen productionAnti-fibrotic[138]
DownmiR-17-5pMouse HSC cellsHSC proliferation upon Salvianolic acid B treatmentProfibrotic[139]
Loc102551149DownmiR-23a/PtenRat NDMA-treated, Rat HSC-T6 cell lineSuppresses HSC activationAnti-fibrotic[140]
MEG3DownTP53Mouse CCI(4)-treated, Human LX-2 cell lineSuppresses HSC proliferation and ECM proteinsAnti-fibrotic[141]
DownmiR-212/Ptch1/ SmoPatient samples, Mouse CCI(4)-treatedSuppresses HSC proliferation and ECM proteinsAnti-fibrotic[142]
Abbreviation: CCI(4): Carbon tetrachloride; CTNNB1: Catenin beta 1; CXCL14: C-X-C motif chemokine ligand 14; CYTH3: Cytohesin 3; DNMT: DNA methyltransferase; DVL2: Dishevelled segment polarity protein 2; ECM: Extracellular matrix; GAS5: Growth arrest-specific transcript 5; GPR137B-PS: G protein-coupled receptor 137 B pseudogene; H19: H19 imprinted maternally expressed transcript; HIF1A-AS1: HIF1A antisense RNA 1; HMGB1: High-mobility group box-1; HOTAIR: HOX transcript antisense RNA; HOTTIP: HOXA distal transcript antisense RNA; HSC: Hepatic stellate cell; KLF6: Kruppel like factor 6; LNC-LFAR1: Liver fibrosis-associated lncRNA 1; LNCRNA-ATB: Long Noncoding RNA Activated By TGFB; MALAT1: Metastasis-associated lung adenocarcinoma transcript 1; MEG3: Maternally expressed 3; MEG8: Maternally expressed 8; NDMA: N-nitrosodimethylamine; NEAT1: Nuclear paraspeckle assembly transcript 1; NOTCH: Notch receptor; PTCH1: Patched 1; PTEN: Phosphatase and tensin homolog; PRC2: Polycomb repressive complex 2; PVT1: Pvt1 oncogene; RAC1: Rac family small GTPase 1; SCARNA10: small Cajal body-specific RNA 10; SMAD: SMAD family member; SMO: Smoothened, frizzled class receptor; SNHG7: Small nucleolar RNA host gene 7; SRF: Serum response factor; TET3: Tet methylcytosine dioxygenase 3; TGFBR: Transforming growth factor beta receptor; TP53: tumor protein p53; TUG1: Taurine up-regulated 1; USP4: Ubiquitin specific peptidase 4; XIST: X inactive specific transcript; ZFP36: ZFP36 ring finger protein.
Another lncRNA involved in the TGFB pathway is the Nuclear paraspeckle assembly transcript 1 (Neat1) that acts as a miR-122 sponge in the mouse model of fibrosis and releases the suppression on Klf6 expression (a TGFB downstream effector) [126]. As discussed above, miR-122 is an antifibrotic miRNA, that suppresses the P4HA1 [46,47], SRF, and FN1 [48] expressions; thus, miR-122 inhibition by the lncRNA NEAT1 promotes HSC activation and hepatic fibrosis. LncRNA Scarna10 is also a positive regulator for the TGFB signaling pathway. This lncRNA acts as a decoy to the Polycomb repressive complex 2 (Prc2, a repressor protein) and inhibits its binding to the promoter regions of genes involved in the TGFB pathway [131]. Silencing of Scarna10 lncRNA in primary HSC cells caused the reduction of the Tgfb, Tgfbr, Smad2/3, and Klf6 expressions [131]. Like SCARNA10, lncRNA HOX transcript antisense RNA (HOTAIR) acts as a scaffold to recruit the PRC2 repressor protein to another lncRNA, maternally expressed gene 3 (MEG3) promoter region [121], thus suppressing the MEG3 action as demonstrated in the human HSC cell line. In this study [121], a further investigation revealed that HOTAIR lncRNA acts as a miR-148b sponge to increase the DNMT1 expression suppressing the MEG3 lncRNA via hypermethylation at the promoter region. Consistent with these findings, a previous study of human fibrotic tissues and HSC cell lines showed that MEG3 lncRNA is an antifibrotic lncRNA that increases the tumor protein p53 (TP53) expression to promote apoptosis [141]. Therefore, the TGFB pathway induced the suppression of lncRNA MEG3 to facilitate HSC proliferation and activation.
Some of the lncRNAs regulate the PI3K/AKT pathway in HSCs. One such lncRNA is HOTAIR which was higher in HSC activation and acted as a miR-29b sponge through competitive binding [120]. In the primary mouse HSCs, the suppression of miR-29b action causes hypermethylation on the promoter region of the Pten gene (a negative regulator of PI3K/AKT) [120], thus reducing the Pten expression. This hypermethylation occurs due to the upregulation of DNA methyltransferase 3B (Dnmt3b) expression, as miR-29b directly binds to Dnmt3b and lncRNA HOTAIR prevents the binding [120]. Like HOTAIR, lncRNA Small Nucleolar RNA Host Gene 7 (SNHG7) suppressed the miR-29b action by competitive binding and resulted in a higher Dnmt3a expression in the primary mouse HSCs [132]. An increase of Dnmt3a causes the upregulation of HSC activation factors Acta2, Col1a1 and autophagy factors Becn1 [132]. LncRNA X Inactive Specific Transcript (XIST) also negatively regulates miR-29b [135]. In this study of human HSC cell line [135], the suppression of miR-29b action caused an increase of High-Mobility Group Box-1 (HMGB1) expression and subsequently activated the transcription of the fibrogenic genes. Another miR-29b sponge lncRNA is the Taurine up-regulated 1 (Tug1) [134]. Although no specific direct target of miR-29b was identified in the CCI(4)-treated mouse model, the HSC fibrogenic factors’ expressions were upregulated [111]. In contrast to the above lncRNAs, Growth arrest-specific transcript 5 (Gas5) lncRNA was reduced in HSC activation, as demonstrated in the CCI(4)-treated mouse models [39]. GAS5 lncRNA acts as a miR-23a sponge to increase Pten expression [39]. Since Pten is a negative regulator of the PI3K/AKT pathway, HSC activation was suppressed [39]. Like Gas5, Loc102551149 lncRNA also sponges miR-23a as observed in the primary rat HSCs, and subsequently increases the expression of Pten [140], thus adding another layer of the co-regulatory network between lncRNAs on miR-23a. Long Intergenic Non-Coding RNA-p21 (LINCRNA-P21) negatively suppresses HSC activation in the human HSC cell line by acting as a miR-181b sponge and consequently increasing the expression of PTEN [138]. These studies show that the complex molecular regulation of PTEN expression consists of lncRNAs targeting the miR-29b (a positive regulator of PI3K/AKT pathway) and lncRNAs targeting miR-23a or miR-181b (negative regulators of PI3K/AKT pathway). Therefore, this lncRNA-miRNA axis could offer new targets for the treatment of hepatic fibrosis.
In HSCs, some lncRNAs regulate the WNT/Beta-catenin signaling pathway. For example, Long Noncoding RNA Activated By TGFB (LNCRNA-ATB) was higher during HSC activation in the human fibrotic tissue and HSC cell line, and this lncRNA acts as a miR-200a sponge, thus increasing the expression of beta-catenin (CTNNB1) [123]. Since beta-catenin is an essential regulator of WNT signaling [99], the upregulation of CTNNB1 will promote hepatic fibrosis. Similarly, in human HSC cell lines, another lncRNA, NEAT1, sponges miR-139-5p to increase CTNNB1 expression [128]. A study of CCI(4)-induced mouse fibrosis models and the isolated primary mouse HSCs showed that lncRNA Snhg7 acts as a miR-378a-3p sponge, and this suppression of miR-378a-3p led to the upregulation of Dishevelled segment polarity protein 2 (Dvl2) expression and consequently increased the expression of Ctnnb1 [133]. Another lncRNA regulating the WNT signaling is the LincRNA-p21 which suppresses miR-17-5p action, and this lncRNA expression is reduced in HSC activation as observed in the primary HSC cells [139]. Although this study [139] did not specify the direct downstream target of miR-17-5p, a previous study of primary mouse HSC and cell lines reported that the WNT inhibitory factor 1 (Wif1) is a direct target of miR-17-5p, and higher expression of miR-17-5p led to a lower expression of Ctnnb1 [143]. Moreover, another study also showed that miR-17-5p suppresses Smad7 expression, and thus a restoration of miR-17-5p action could also contribute to the TGFB pathway suppression [29].
In addition, some lncRNAs are involved in the Hh signaling pathway during HSC activation. For example, the Plasmacytoma variant translocation 1 (Pvt1) lncRNA acts as a miR-152 sponge to increase the expression of Dnmt1 in the isolated primary HSC cells [129,130]. This Dnmt1 enzyme then promotes the hypermethylation of the promoter region of the Patched 1 (Ptch1) gene. Since Ptch1 is a negative modulator of Hh signaling [144], the loss of Ptch1 expression promotes Hh signaling and epithelial-mesenchymal transition (EMT) in HSC activation. In contrast to Pvt1, Meg3 lncRNA inhibits the EMT process, as this lncRNA binds to Smoothened (Smo) protein and partly suppresses the EMT process [142]. Notably, the Meg3 also acts as a miR-212 sponge and increases the expression of Ptch1, thus further completely suppressing Hh signaling and the EMT process, as demonstrated in the mouse HSCs [142]. Another reported lncRNA is the MEG8 lncRNA that suppresses the EMT process by reducing the expression of NOTCH signaling receptors (NOTCH2 and NOTCH3) in both human and mouse HSC cell lines [125]. However, the expression of MEG8 was higher in activated HSCs, despite its antifibrotic role [125], suggesting that this lncRNA may be upregulated as part of the compensatory mechanisms following HSC activation. Further work is needed to confirm this lncRNA MEG8 role in hepatic fibrosis. Most of these reported lncRNAs interact with the miRNAs as their sponges and releases the target genes or mRNAs. Since lncRNAs’ expressions are very specific in cell type, developmental, and disease status [106,107], these lncRNAs could be used as biomarkers for HSC activation. In some cases, the restoration of lncRNA expression improves and prevents hepatic fibrosis [112].

4. Circular RNAs and HSCs

Circular RNA (circRNA) is a covalently closed continuous loop RNA derived from the back-splicing event during transcription, in which the 3′ end of the splice donor site is joined to a 5′ end of the upstream exon forming a closed-loop structure [145]. This splicing event generates different classes of circRNAs such as (1) exonic circRNAs (contains exons only), (2) exon-intron circRNAs (EIciRNAs), and (3) intronic circRNAs (ciRNAs) [145,146,147]. The biogenesis of circRNA has been discussed in detail previously [145,148]. Generally, circRNAs have similar regulatory action like lncRNAs, with both cis- and trans-regulation of the target molecules, and tissue-, developmental stage-, and subcellular location-specific expression [145,149]. Mechanistically, circRNAs regulate gene expression by (1) acting as a miRNA sponge, (2) as a protein sponge or decoy, (3) as parental gene regulators, and (4) regulating the expression of a parental gene; and (5) translating into peptides for circRNAs with a start codon [145,146,148]. Previous studies have discussed the role of circRNAs in liver diseases [150,151,152]; however, knowledge of this RNA type is still lacking. The circRNAs involved in HSC activation are summarized in Table 3 and Figure 1.
Most of the circRNAs in HSC activation are in the TGFB pathways. One example is the circUBE2K circRNA, derived from the Ubiquitin-conjugating enzyme E2 K (UBE2K) gene via the back splicing event. The UBE2K is involved in the suppression of gene transcription via the histone H3K9 trimethylation [165]. The circUBE2K expression was higher in both activated human and mouse HSCs, and this circRNA acts as a miR-149-5p sponge, consequently increasing the expression of TGB2 to promote the expression of ACTA2 and COL1A1 in HSC cells [158]. Silencing this circRNA resulted in the suppression of HSC activation and restoration of miR-149-5p expression [158], confirming the interaction between the two RNAs. Another circRNA is the circ_0071410 that was higher in HSC activation, and this circRNA acts as a miR-9-5p sponge as observed in the human HSC cell line [154]. Although no specific direct target was reported for miR-9-5p, a previous study of HSCs showed that miR-9-5p negatively regulates both TGFB receptors expressions [80], thus a higher circ_0071410 expression will promote the TGFB signaling via the suppression of miR-9-5p. The expression of circPWWP2A was also higher in the activated human HSC cell line, and this circRNA negatively regulates the expression of miR-203, subsequently increasing the expression of Follistatin like 1 (FSTL1) [155]. A previous knockdown of the FSTL1 study showed that FSTL1 associates with SMAD3 protein and its expression is important for the TGFB/SMAD3 signaling [166]. In this same study [155], circPWWP2A also negatively regulated the expression of miR-223 and subsequently increased the expression of Toll-like receptor 4 (TLR4). This upregulation of TLR4 expression enhances the TGFB signaling by reducing the TGFB pseudoreceptor, BMP and Activin Membrane-Bound Inhibitor (BAMBI), to sensitize HSCs to TGFB signals [155,167]. Interestingly, another circRNA, circTUBD1, negatively regulates miR-146a-5p action and activates the human HSC cell line proliferation via the TLR4 pathway [157]. Although no direct target was reported in this study [157], the loss of miR-146a-5p expression promoted HSC proliferation and activation via the WNT signaling pathway [56]. Another pro-fibrotic circRNA is the circRSF1 that negatively suppresses the action of miR-146a-5p in human the HSC cell line [156]. The reduced expression of miR-146a-5p causes the increase of Ras-related C3 botulinum toxin substrate 1 (RAC1) expression [156], which previously reported to regulate hepatic fibrosis via the Hh signaling [73]. The identification of more pro-fibrotic circRNAs in the TGFB signaling pathway would offer newer therapeutic targets to prevent HSC activation.
In contrast, some of the circRNAs are antifibrotic by suppressing the TGFB pathway. One such circRNA is the circ_0007874, also known as the cMTO1, reported in the human patients and HSC cell line. This cMTO1 acts as a miR-17-5p sponge and subsequently increases the expression of this miRNA target, the SMAD7 [161]. Since SMAD7 is the negative regulator of the TGFB pathway [83,84], the high expression of cMTO1 is needed to suppress the TGFB signaling. Recently, another circRNA was also reported to regulate SMAD7 expression via the suppression of miRNA expression. CircPSD3 expression was reduced in the activated mouse HSCs, and this circRNA can act as a miR-92b-3p sponge [164]. The loss of circPSD3 expression causes the miR-92b-3p to suppress the expression of Smad7 [161] and consequently activates HSC activation via the TGFB signaling pathway. Another antifibrotic circRNA in the TGFB pathway is the circ_0070963 that acts as a miR-223-3p sponge in the human HSC cell line [162]. The suppression of miR-223-3p causes the increase of LEM Domain Containing 3 (LEMD3) expression [162]. LEMD3 is an antagonist to the TGFB-mediated signaling [168]. Thus, the increase of circ_0070963 expression will suppress the HSC activation.
Another affected pathway for circRNA regulation is the PI3K/AKT signaling pathway. One circRNA, circ_0067835, promotes the HSC activation via the suppression of miR-155 expression in the human HSC cell line [153]. This suppression of miR-155 causes the increase of the Forkhead box O3 (FOXO3) transcription factor, which is associated with HSC proliferation via the PI3K/AKT pathway [153,169]. Another circRNA that regulates the PI3K/AKT pathway is the cMTO1, and this circRNA negatively regulates the miR-181b-5p [160]. In this study of CCI(4)-induced mouse models and primary HSC cells [160], the suppression of miR-181b-5p leads to the increase of Pten expression. Since Pten is a negative regulator of the PI3K/AKT pathway [93], circRNA cMTO1 is antifibrotic to suppress the miR-181b-5p action. Similarly, the circFBXW4 negatively regulates miR-18b-3p action, consequently increasing the expression of F-box and WD repeat domain containing 7 (Fbxw7) in the CCI(4)-induced mice [163]. The FBXW7 reduces Sterol regulatory element-binding transcription factor 1 (SREBF1) expression and subsequently suppresses the PI3K/AKT signaling [170,171]. FBXW7 also prevented the ZFP36-mediated autophagy inactivation in isolated murine HSC by acting as a decoy to ZFP36, thus sensitizing the HSCs to a ferroptosis (a program of cell death) [172]. The last reported circRNA is the circ_0004018 that was reduced in the activated primary mouse HSCs [159]. In this study [159], circ_0004018 acts as a miR-660-3p sponge and causes the increase of Telomerase associated protein 1 (Tep1) expression. Although the function of Tep1 in HSC activation is unknown, the increase of both circ_0004018 and Tep1 suppress HSC proliferation [159]. These previous findings show that circRNAs regulate HSC activation via interactions with miRNAs. Even though the current research area is still new, some of these circRNAs are pro-fibrotic, and some are antifibrotic; thus, they could be used as therapeutic targets.

5. Noncoding RNA Interactions in HSCs

Noncoding RNAs’ (ncRNAs) roles in HSC activation and their co-regulatory networks could offer the future development of newer therapeutic targets for hepatic fibrosis treatment. Most of the ncRNAs are involved in the TGFB signaling pathway, with some of these ncRNAs forming the co-regulatory network on the essential regulators. One of these is the regulation of the SMAD7 expression, the negative regulator of the TGFB pathway. The SMAD7 expression is regulated with multiple miRNAs and circRNAs (Figure 1), indicating strict and multi-layer regulation. These findings could offer information on the selection of which RNA molecules inhibit HSC activation and, therefore, treat hepatic fibrosis. For example, miR-17-5p is a profibrotic miRNA that negatively regulates Smad7 expression [29] to promote TGFB signaling. However, higher expression of cMTO1 circular RNA will suppress miR-17-5p action due to endogenous competitive binding or sponging [161]. Thus, increasing cMTO1 expression is an excellent strategy to prevent HSC activation by restoring the Smad7 expression. In addition, LNCRNA-P21 also negatively regulates miR-17-5p action [139]; thus, it can compete with cMTO1 to regulate miR-17-5p action. This competitive binding between the lncRNA and circRNA sponging the miRNA could be used as a new therapeutic target to treat hepatic fibrosis by modulating their interactions and expressions.
In other pathways, another target of cMTO1 and LINCRNA_P21 is the miR-181b, and this miRNA negatively regulates Pten expression [30], a negative modulator of the PI3K/AKT pathway. Like SMAD7, PTEN is also negatively regulated with multiple miRNAs (Figure 1), indicating its important function to suppress HSC activation. Interestingly, Pten is also negatively regulated by miR-23a [39], and for this miRNA, two lncRNAs, Gas5 [39] and Loc102551149 [140] sponge the miR-23a and thus restore Pten expression. A more complicated multi-layer regulation of Pten expression is with the miR-29b action. On the promoter region of the Pten gene, hypermethylation could be induced by the upregulation of the Dnmt3s due to the suppression of miR-29b action [120,132]. Thus, to ensure the Pten gene is hypermethylated and suppressed, four lncRNAs (HOTAIR, Snhg7, Tug1, and XIST) co-regulate the expression of miR-29b [120,132,134,135], and they could be a new target for the development of future drugs for hepatic fibrosis. The manipulation of miR-29b expression to improve or prevent hepatic fibrosis is beneficial, as this miRNA is antifibrotic and could suppress the ECM production and HSC activation. Indeed, a previous study of the mouse fibrosis model showed that inducing miR-29b expression by estrogen treatment in vivo relieved hepatic fibrosis [173]. Therefore, the new strategy or treatment approach is to suppress these four lncRNAs (HOTAIR, Snhg7, Tug1, and XIST) to increase miR-29b action.
In Hh signaling, the core RNA negative regulator is the Meg3 lncRNA. This lncRNA directly binds to the Smo protein to release its suppression on the Sufu, thus allowing the inhibition of Gli-mediated Hh signaling [142]. To further suppress the Smo, MEG3 lncRNA also sponges the miR-122 to increase the expression of Ptch1 [142], which, in turn, also suppresses the Smo action. Thus, restoring Meg3 lncRNA expression will benefit the patients, suppressing the EMT process in HSC activation. In WNT/ Beta-catenin signaling, the core RNA negative regulator is the miR-378a-3p, as this miRNA regulates the critical effectors in the WNT signaling, such as the Wnt10a [76] and Dvl2 [133] proteins. However, this miR-378a-3p action is prevented by the binding of Snhg7 lncRNA [133]. Therefore, suppression of Snhg7 lncRNA expression will prevent HSC activation by suppressing WNT/Beta-catenin signaling.
Although the ncRNAs could potentially be used for therapeutic targets to improve or prevent HSC activation, some challenges and issues exist [174]. One issue is to understand that ncRNAs work in groups and co-regulate each other. From the discussion above, some of these ncRNAs target the same single target and critical molecules. Thus, the identification of these key molecules could efficiently improve the target specificity for the therapeutics development. This prospect is promising, as the ncRNA-based therapy has been successfully implemented in the preclinical studies. One example is a miRNA-based therapy for hepatitis C virus (HCV) infection (Miravirsen) [175]. This Miravirsen is a β-D-oxy-locked nucleic acid (LNA)-modified phosphorothioate antisense oligonucleotide, suppressing miR-122 action and demonstrating significant antiviral activity without evidence of viral resistance [175]. Furthermore, this Miravirsen is currently in phase II clinical investigation [176], thus supporting the potential for more future drugs utilizing the ncRNAs.
Another issue concerns the methodology used to manipulate the therapeutic target expression, particularly the in vivo settings. The specific delivery of these ncRNAs to the liver without affecting other organs is critical. The usage of nanoparticle technology as carriers could address the off-target issue. A mouse study of hepatocellular carcinoma (HCC) showed that the LNP-DP1, a cationic lipid nanoparticle, could be used as a carrier of miR-122 mimics in vitro and in vivo delivery to reduce the target genes miR-122 [177]. The hepatocytes took in the nanoparticles without any toxicity observed and resulted in an almost 50% reduction of HCC xenografts within 30 days [177]. Similarly, in a mouse model of NAFLD induced by the methionine-choline-deficient diet (MCD), miR-146b expression was significantly reduced. Lactosylated PDMAEMA (a water-soluble cationic polymer) nanoparticles effectively delivered the miR-146b mimic to the hepatocytes in vivo and alleviated the hepatic steatosis [178]. Another possible carrier is the extracellular vesicles (EVs), the naturally occurring small lipid membrane vesicles released by various cells. EVs carry bioactive components, including the ncRNAs in their cargos, and mediate the changes in the recipient cells [179,180]. Studies of EVs released from the normal hepatocyte and taken in by the activated HSCs show that EVs could suppress fibrosis [181,182], suggesting their potential to carry information to improve or prevent fibrosis. From these findings, the advancement of specific delivery tools or technologies will make the usage of ncRNAs-based therapy to suppress liver fibrosis possible.

6. Conclusions

Identifying the essential regulators in HSC activation will provide an excellent window and strategy to treat hepatic fibrosis. Since the fibrosis process is reversible, the restoration of the hepatic function is plausible. In this review, previous findings show that HSC activation is regulated by multi-layer co-regulatory networks between the ncRNAs (circRNA-lncRNA-miRNA), and they could be used to treat liver fibrosis. Using these ncRNAs as the alternative newer treatment drug is possible. The success of some ncRNA-based therapies in the preclinical and clinical trials opens up the potential of using these ncRNAs for future treatment. Therefore, more studies are needed to address the potential of these regulatory ncRNAs as therapeutic targets for the treatment of hepatic fibrosis.

Author Contributions

Conceptualization, S.A.S. and N.A.A.M.; writing—original draft preparation, S.A.S., V.D. and K.N.A.G.; writing—review and editing, S.A.S. and N.A.A.M. All authors have read and agreed to the published version of the manuscript.

Funding

This manuscript was funded by the UKM University Research Grant, grant number: GUP-2021-067.

Institutional Review Board Statement

Not applicable.

Informed Consent Statement

Not applicable.

Data Availability Statement

Not applicable.

Acknowledgments

A part of the figure is created using BioRender.com via a licensed account.

Conflicts of Interest

The authors declare no conflict of interest.

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Livers 01 00021 g001 550
Figure 1. A schematic diagram showing the molecular regulation of hepatic stellate cells activation. ➔ Represents the positive regulation, ┴ represents the negative regulation, dashed line represents indirect regulation, and red color text represents multiple target regulation. Abbreviations: AKT: AKT serine/threonine kinase; Circ: Circular; ERK: Extracellular signal-regulated kinase; Hh: Hedgehog; HSC: Hepatic stellate cells; MEK: dual-specificity mitogen-activated protein kinase; LncRNA: Long noncoding RNA; PI3K: Phosphatidylinositol-3 kinase; TGFB: Transforming Growth Factor Beta; WNT: Wingless/Integrated.
Figure 1. A schematic diagram showing the molecular regulation of hepatic stellate cells activation. ➔ Represents the positive regulation, ┴ represents the negative regulation, dashed line represents indirect regulation, and red color text represents multiple target regulation. Abbreviations: AKT: AKT serine/threonine kinase; Circ: Circular; ERK: Extracellular signal-regulated kinase; Hh: Hedgehog; HSC: Hepatic stellate cells; MEK: dual-specificity mitogen-activated protein kinase; LncRNA: Long noncoding RNA; PI3K: Phosphatidylinositol-3 kinase; TGFB: Transforming Growth Factor Beta; WNT: Wingless/Integrated.
Livers 01 00021 g001
Table
Table 1. Summary of microRNA involved in human hepatic stellate cells (HSC) activation in fibrosis.
Table 1. Summary of microRNA involved in human hepatic stellate cells (HSC) activation in fibrosis.
MicroRNAExpressionTarget GeneDisease ModelFunctionRole in FibrosisReferences
miR-125a-5pUpHif1aMouse CCI(4)-treated, Mouse HSC cell lineActivates HSCs proliferationProfibrotic[22]
miR-126UpNFKBIAHuman LX-2 cell lineActivates HSCs proliferationProfibrotic[23]
miR-130aUpPpargRat CCI(4)-treated, Rat HSC-T6 cell lineActivates HSCs proliferationProfibrotic[24]
miR-130bUpPpargRat CCI(4)-treated, Rat HSC-T6 cell lineActivates HSCs proliferationProfibrotic[24]
miR-130b-5pUpSIRT4Patient samples, Rat HSC-T6 cell lineActivates HSCs proliferationProfibrotic[25]
miR-140-3pUpPtenRat HSC-T6 cell lineActivates HSCs proliferationProfibrotic[26]
miR-141UpPTENPatient samples, Human LX-2 cell line, Rat HSC-T6 cell lineActivates HSCs proliferationProfibrotic[27]
miR-145UpKLF4Patient samples, Rat CCI(4)-treated, Human LX-2 cell line, Rat HSC cell lineActivates HSCs proliferationProfibrotic[28]
miR-17-5pUpSmad7Patient samples, Rat CCI(4)-treated, Rat HSC cell lineActivates HSCs proliferation upon TGFB1 treatmentProfibrotic[29]
miR-181bUpPtenHuman LX-2 cell line, Rat CCI(4)-treatedPromotes the profibrotic factors (Acta2 and Col1a2)Profibrotic[30]
UpCdkn1bPatient samples, Rat HSC-T6 cell lineActivates HSCs proliferationProfibrotic[31]
miR-188-5pUpPtenPatient samples, Mouse CCI(4)-treated, Rat CCI(4)-treatedActivates HSCs proliferationProfibrotic[32]
miR-199a-3pUpCav2Mouse CCI(4)-treated, Rat CCI(4)-treatedHSC activationProfibrotic[33]
miR-21UpSPRY2 and HNF4APatient samples, HEK-293 cell line, Rat HSC-T6 cell line, Hepatocyte cell lineHSC activation via ERK1 signalingProfibrotic[34]
miR-212-3pUpSmad7Human LX-2 cell line, HEK293T cell line, Mouse CCI(4)-treatedActivates HSCs proliferation upon TGFB1 treatmentProfibrotic[35]
miR-214UpSUFUHuman LX-2 cell line, Rat HSC cell lineHSC activationProfibrotic[36]
miR-221UpCol1a1Patient samples, Mouse TAA-treated, Mouse MCDD-treatedHSC activationProfibrotic[37]
UpLAMP2Human LX-2 cell line, Mouse CCI(4)-treatedHSC activationProfibrotic[38]
miR-23aUpPtenRat CCI(4)-treatedHSC activationProfibrotic[39]
miR-27aUpPPARGPatient samples, Human LX-2 and HepG2 cell lines, Rat DMN-treated Activates HSC proliferation and profibrotic factorsProfibrotic[40]
miR-503UpSmad7Human LX-2 cell line, Rat CCI(4)-treatedActivates HSC proliferationProfibrotic[41]
miR-708UpTMEM88Patient samples, Human LX-2 cell lineActivates HSC proliferation via WNT signalingProfibrotic[42]
UpZeb1Human LX-2 cell line, Mouse CCI(4)-treatedActivates HSC proliferation via WNT signalingProfibrotic[43]
miR-942UpBAMBIPatient samples, Human LX-2 cell lineHSC activationProfibrotic[44]
miR-101DownTgfbr1 and Klf6Human 293A cell line, Mouse AML-12 cell line, Rat HSC-T6 cell line, Mouse CCI(4)-treatedSuppresses HSC activation and proliferationAnti-fibrotic[45]
miR-122DownP4HA1Patient samples, Human LX-2 cell line, Mouse CCI(4)-treated, Rat HSC cell lineSuppresses HSC activation and collagen productionAnti-fibrotic[46,47]
DownSRF and FN1Patient samples, Human LX-2 and HEK293T cell lines, Mouse CCI(4)-treatedSuppresses HSC activation and collagen productionAnti-fibrotic[48]
miR-125bDownGli3Patient samples, Human LX-2, AML12, LO2, LX2, THP-1 and 293T cell lines, Rat CCI(4)-treatedSuppresses HSC activation and ECM proteinsAnti-fibrotic[49]
miR-126 *DownVegfaRat CCI(4)-treatedSuppresses HSC activation and proliferationAnti-fibrotic[50]
miR-130a-3pDownTgfbr1/Tgfbr2Patient samples, Mouse (NASH)Suppresses HSC activationAnti-fibrotic[51]
miR-139-5pDownPMP22Human LX-2 cell line, Mouse CCI(4)-treatedSuppresses HSC activationAnti-fibrotic[52]
miR-142-3pDownTgfbr1Patient samples, Rat HSC cell lineSuppresses HSC activationAnti-fibrotic[53]
miR-145DownZEB2Human LX-2 cell line, Mouse CCI(4)-treated, Rat HSC-T6 cell lineSuppresses HSC activation and proliferationAnti-fibrotic[54]
miR-146aDownSmad4Rat CCI(4)-treated, Rat HSC-T6 cell lineSuppresses HSC activation upon TGFB1 treatmentAnti-fibrotic[55]
miR-146a-5pDownWnt1 and Wnt5aMouse (NASH), Mouse primary HSC cells, Human LX-2 and Rat HSC-T6 cell linesSuppresses HSC activationAnti-fibrotic[56]
DownPTPRAHuman LX-2 cell lineSuppresses HSC activationAnti-fibrotic[57]
miR-150DownSP1 and COL4A4Human LX-2 cell lineSuppresses HSC proliferation and ECM proteinsAnti-fibrotic[58]
miR-152DownGli3Patient samples, Rat CCI(4)-treated, HEK293T, LX-2, THP-1, AML12 and L02 cell linesSuppresses HSC activationAnti-fibrotic[59]
miR-155DownTCF4 and AGTR1Patient samples, Rat DMN-treated, Rat HSC cells, Rat HSC-T6 and Human HEK-293 cell linesSuppresses HSC activation via ERK1 signalingAnti-fibrotic[60]
miR-193a/b-3pDownCAPRIN1 and TGFB2Mouse ConA-treated, Human LX-2 cell lineSuppresses HSC activation and proliferationAnti-fibrotic[61]
miR-194DownAKT2Patient samples, Mouse CCI(4)-treated, Human LX-2 cell lineSuppresses HSC proliferation and collagen productionAnti-fibrotic[62]
miR-195DownCCNE1Human LX-2 cell lineSuppresses HSC proliferation upon IFNB1 treatmentAnti-fibrotic[63]
miR-200aDownCtnnb1 and Tgfb2Rat CCI(4)-treated, Rat HSC-T6 and Human HEK-293 cell linesSuppresses HSC proliferation via TGFB and WNT/β-catenin pathwaysAnti-fibrotic[64]
DownSirt1Rat CCI(4)-treated, Rat HSC-T6 cell lineSuppresses HSC activation and proliferationAnti-fibrotic[65]
miR-29bDownCol1a1Mouse HSC cells, Human LX-2 cell lineSuppresses HSC activationAnti-fibrotic[66]
miR-30DownKlf11Mouse CCI(4)-treated, Rat HSC-T6 and HEK-293 cell linesSuppresses HSC activationAnti-fibrotic[67]
miR-30aDownBecn1Mouse CCI(4)-treated, Rat HSC-T6 and LX-2 cell linesSuppresses HSC activation and ECM proteinsAnti-fibrotic[68]
miR-335DownTncRat HSC cellsSuppresses HSC proliferation and collagen productionAnti-fibrotic[69]
miR-338-3pDownCdk4Rat HSC cells, Rat HSC-T6 and Human HEK-293 cell linesSuppresses HSC activation and proliferationAnti-fibrotic[70]
miR-34a-5pDownSmad4Patient samples, Mouse CCI(4)-treated, Human LX-2 cell lineSuppresses HSC activationAnti-fibrotic[71]
DownSnai1Patient samples, Rat CCI(4)-treated, HEK-293 cell lineSuppresses HSC proliferation and collagen productionAnti-fibrotic[72]
miR-375DownRAC1Patient samples, Mouse CCI(4)-treatedSuppresses HSC activationAnti-fibrotic[73]
miR-378aDownTGFB2Patient samples, Rat CCI(4)-treated, Human LX-2 cell lineSuppresses HSC proliferationAnti-fibrotic[74]
miR-378a-3pDownGli3Patient samples, Mouse CCI(4)-treated, LX-2, HepG2 and N2a cell linesSuppresses HSC activationAnti-fibrotic[75]
DownWnt10aPatient samples, Rat CCI(4)-treated, HSC-T6 cell lineSuppresses HSC proliferationAnti-fibrotic[76]
miR-454DownWnt10aRat CCI(4)-treated, HSC-T6 cell lineSuppresses HSC proliferationAnti-fibrotic[77]
miR-455-3pDownHSF1Patient samples, Mouse CCI(4)-treated, LX-2 and HSC-T6 cell linesSuppresses HSC proliferation and ECM proteinsAnti-fibrotic[78]
miR-9DownABCC1Patient samples, Human LX-2, Mouse CCI(4)-treated and primary HSC cellsSuppresses HSC proliferationAnti-fibrotic[79]
miR-9-5pDownTGFBR1/TGFBR2Patient samples, Mouse CCI(4)-treated, LX-2 cell lineSuppresses HSC activationAnti-fibrotic[80]
miR-98DownHLFPatient samples, Mouse CCI(4)-treated, LX-2 cell lineSuppresses HSC activationAnti-fibrotic[81]
Abbreviation: ABCC1: ATP binding cassette subfamily C member 1; ACTA2: Actin alpha 2 smooth muscle; AGTR1: Angiotensin II receptor type 1; AKT2: AKT serine/threonine kinase 2; BAMBI: BMP and activin membrane bound inhibitor; BCL2: BCL2 apoptosis regulator; BECN1: Beclin 1; CAPRIN1: cell cycle associated protein 1; CAV2: Caveolin 2; CBDL: Common bile duct ligation; CCI(4): Carbon tetrachloride; CCNE1: cyclin E1; CDK4: Cyclin dependent kinase 4; CDKN1B: Cyclin dependent kinase inhibitor 1B; COL1A1: Collagen type I alpha 1 chain; COL1A2: Collagen type I alpha 2 chain; COL4A4: Collagen type IV alpha 4 chain; ConA: Concanavalin A; CTNNB1: Catenin beta 1; ERK1: extracellular signal-regulated kinase 1; DMN: Dimethylnitrosamine; FN1: Fibronectin 1; GLI3: GLI family zinc finger 3; HIF1A: hypoxia inducible factor 1 subunit alpha; HLF: Hepatic leukemia factor; HNF4A: Hepatocyte nuclear factor 4 alpha; HSC: Hepatic stellate cell; HSF1: Heat shock transcription factor 1; IFNB1: Interferon beta 1; KLF4: Kruppel like factor 4; KLF6: Kruppel like factor 6; KLF11: Kruppel like factor 11; LAMP2: Lysosome-associated membrane glycoprotein 2; MCDD: Methionine- and choline-deficient diet; NFKBIA: NFKB inhibitor alpha; P4HA1: Prolyl 4-Hydroxylase Subunit Alpha 1; PMP22: peripheral myelin protein 22; PPARG: Peroxisome proliferator activated receptor gamma; PTEN: Phosphatase and tensin homolog; PTPRA: Protein tyrosine phosphatase receptor type A; RAC1: Rac family small GTPase 1; SIRT1: Sirtuin 1; SMAD: SMAD family member; SNAI1: Snail family transcriptional repressor 1; SP1: Sp1 transcription factor 1; SPRY2: Sprouty RTK signaling antagonist 2; SRF: Serum response factor; SUFU: SUFU negative regulator of hedgehog signaling; TAA: Thioacetamide; TCF4: Transcription factor 4; TGFB1: Transforming growth factor beta 1; TGFB2: Transforming growth factor beta 2; TGFBR1: transforming growth factor beta receptor 1; TMEM88: transmembrane protein 88; TNC: Tenascin C; VEGFA: Vascular endothelial growth factor A; WNT: Wnt family member; ZEB2: Zinc finger E-box-binding homeobox 2.
Table
Table 3. Summary of circular RNA (circRNA) involved in hepatic stellate cells (HSC) activation in fibrosis.
Table 3. Summary of circular RNA (circRNA) involved in hepatic stellate cells (HSC) activation in fibrosis.
CircRNAExpressionTarget MoleculeDisease ModelFunctionRole in FibrosisReferences
circ_0067835UpmiR-155/FOXO3Human LX-2 cell line, Mouse CCI(4)-treatedHSC activation via the PI3K/Akt signaling pathwayProfibrotic[153]
circ_0071410UpmiR-9-5pHuman LX-2 cell lineHSC activationProfibrotic[154]
circPWWP2AUpmiR-203/FSTL1Human LX-2 cell line, Mouse CCI(4)-treatedActivates HSC proliferationProfibrotic[155]
UpmiR-223/TLR4Human LX-2 cell line, Mouse CCI(4)-treatedActivates HSC proliferationProfibrotic[155]
circRSF1UpmiR-146a-5p/RAC1Human LX-2 cell lineHSC activationProfibrotic[156]
circTUBD1UpmiR-146a-5pHuman LX-2 cell lineActivates HSC proliferation via TLR4 pathwayProfibrotic[157]
circUBE2KUpmiR-149-5p/TGFB2Human LX-2 cell line, Mouse CCI(4)-treatedActivates HSC proliferationProfibrotic[158]
circ_0004018DownmiR-660-3p/Tep1Mouse CCI(4)-treatedSuppresses the HSC proliferation and activationAnti-fibrotic[159]
circ_0007874/cMTO1DownmiR-181b-5p/PtenPatient samples, Mouse CCI(4)-treatedSuppresses the HSC activationAnti-fibrotic[160]
DownmiR-17-5p/SMAD7Patient samples, LX-2 cell lineSuppresses the HSC activationAnti-fibrotic[161]
circ_0070963DownmiR-223-3p/LEMD3Human LX-2 cell line, Mouse CCI(4)-treatedSuppresses the HSC proliferationAnti-fibrotic[162]
circFBXW4DownmiR-18b-3p/FBXW7Patient samples, Human LX-2 cell line, Mouse CCI(4)-treatedSuppresses the HSC proliferation and activationAnti-fibrotic[163]
circPSD3DownmiR-92b-3p/SMAD7Patient samples, Human LX-2 cell line, Mouse CCI(4)-treatedSuppresses the HSC proliferation and activationAnti-fibrotic[164]
Abbreviation: CCI(4): Carbon tetrachloride; FBXW7: F-box and WD repeat domain containing 7; FOXO3: Forkhead box O3; FSTL1: Follistatin like 1; HSC: Hepatic stellate cell; LEMD3: LEM domain containing 3; PTEN: Phosphatase and tensin homolog; RAC1: Ras-related C3 botulinum toxin substrate 1; SMAD7: SMAD family member 7; TEP1: Telomerase associated protein 1; TLR4: Toll-like receptor 4.
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Sulaiman, S.A.; Dorairaj, V.; Abdul Ghafar, K.N.; Abdul Murad, N.A. Noncoding RNAs Interactions in Hepatic Stellate Cells during Hepatic Fibrosis. Livers 2021, 1, 263-285. https://doi.org/10.3390/livers1040021

AMA Style

Sulaiman SA, Dorairaj V, Abdul Ghafar KN, Abdul Murad NA. Noncoding RNAs Interactions in Hepatic Stellate Cells during Hepatic Fibrosis. Livers. 2021; 1(4):263-285. https://doi.org/10.3390/livers1040021

Chicago/Turabian Style

Sulaiman, Siti Aishah, Vicneswarry Dorairaj, Khairun Nur Abdul Ghafar, and Nor Azian Abdul Murad. 2021. "Noncoding RNAs Interactions in Hepatic Stellate Cells during Hepatic Fibrosis" Livers 1, no. 4: 263-285. https://doi.org/10.3390/livers1040021

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